Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EHMT2

Cell type

Cell type Class
Muscle
Cell type
RD/18
NA
NA

Attributes by original data submitter

Sample

source_name
EHMT2 ChIP
cell line
RD18
cell type
Embryonal rhabdomyosarcoma cell line
passages
20-22
chip antibody
Anti-EHMT2/G9A (abcam, #40542)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were lysed with Farnham lysis buffer followed by RIPA buffer, chromatin sheared and DNA was extracted as per manufacturer's protocol ChIP kit (#17-295, Mercmillipore, Bedford, MA, USA). 30ng ChIPed DNA and corresponding input were used for ChIP-seq library construction (New England Biolabs). Library fragment size was determined using the DNA 1000 Kit on the Agilent Bioanalyzer (Agilent Technologies). Libraries were pooled in equimolar and cluster generation was performed on the Illumina cBOT system. Sequencing (150bp single-end) was performed on the Illumina HiSeq 3000 according to manufacturer's protocol at the Duke-NUS Genome Biology Facility, Singapore. Sequencing reads were mapped against hg19 and G9a bound regions were identified by MACS2.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
32618669
Reads aligned (%)
91.0
Duplicates removed (%)
33.9
Number of peaks
16792 (qval < 1E-05)

hg19

Number of total reads
32618669
Reads aligned (%)
90.7
Duplicates removed (%)
34.0
Number of peaks
16704 (qval < 1E-05)

Base call quality data from DBCLS SRA